2008
Validation of oligoarrays for quantitative exploration of the transcriptome
Nygaard V, Liu F, Holden M, Kuo W, Trimarchi J, Ohno-Machado L, Cepko C, Frigessi A, Glad I, van de Wiel M, Hovig E, Lyng H. Validation of oligoarrays for quantitative exploration of the transcriptome. BMC Genomics 2008, 9: 258. PMID: 18513391, PMCID: PMC2430212, DOI: 10.1186/1471-2164-9-258.Peer-Reviewed Original Research
2004
Genomic Analysis of Mouse Retinal Development
Blackshaw S, Harpavat S, Trimarchi J, Cai L, Huang H, Kuo W, Weber G, Lee K, Fraioli R, Cho S, Yung R, Asch E, Ohno-Machado L, Wong W, Cepko C. Genomic Analysis of Mouse Retinal Development. PLOS Biology 2004, 2: e247. PMID: 15226823, PMCID: PMC439783, DOI: 10.1371/journal.pbio.0020247.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBromodeoxyuridineCell LineageChromosome MappingCluster AnalysisComputational BiologyDatabases, GeneticExpressed Sequence TagsGene Expression RegulationGene Expression Regulation, DevelopmentalGene LibraryGenomeIn Situ HybridizationInterneuronsMiceMitosisMolecular Sequence DataNeurogliaOpen Reading FramesRetinaRNA, MessengerStem CellsTime FactorsConceptsMitotic progenitor cellsRetinal cell typesGene expressionCell typesExpression patternsRetinal developmentDevelopmental gene expression patternsGene expression patternsMajor retinal cell typesOpen reading frameProgenitor cellsMüller gliaPhotoreceptor-enriched genesGene expression profilesMouse retinal developmentMajor cell typesRetinal disease genesGenomic analysisMultiple retinal cell typesChromosomal intervalMolecular atlasMultiple transcriptsReading frameTaxonomic classificationDisease genes
2003
Microarrays and clinical dentistry
Kuo W, Whipple M, Jenssen T, Todd R, Epstein J, Ohno-Machado L, Sonis S, Park P. Microarrays and clinical dentistry. The Journal Of The American Dental Association 2003, 134: 456-462. PMID: 12733779, DOI: 10.14219/jada.archive.2003.0195.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsAdvanced microarray technologiesEntire human genomeActivity of genesGene expression patternsHuman Genome ProjectGenome levelHuman genomeGenetic approachesCellular developmentDNA sequencesGenome ProjectExciting biologyCandidate genesExpression patternsMicroarray technologyMicroarrayNumber of cancersGenesMolecular profileAnalysis of diseasesMolecular behaviorGenomeBiologyTissue samplesProtein
2002
Gene expression profiling by DNA microarrays and its application to dental research
Kuo W, Whipple M, Sonis S, Ohno-Machado L, Jenssen T. Gene expression profiling by DNA microarrays and its application to dental research. Oral Oncology 2002, 38: 650-656. PMID: 12353490, DOI: 10.1016/s1368-8375(02)00013-1.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsGenome-wide gene expression studiesMicroarray technologyThousands of genesVariety of genesDNA microarray technologyGene expression studiesDisease-specific genesGene expression profilingGenetic profileGene discoveryMolecular functioningSpecific genesExpression profilingDNA microarraysExpression studiesMolecular geneticsIncorporation of DNAGenesIndividual patient's genetic profileDNAComplicated networkDisease statesDrug developmentNormal functioningMRNA expressionAnalysis of matched mRNA measurements from two different microarray technologies
Kuo W, Jenssen T, Butte A, Ohno-Machado L, Kohane I. Analysis of matched mRNA measurements from two different microarray technologies. Bioinformatics 2002, 18: 405-412. PMID: 11934739, DOI: 10.1093/bioinformatics/18.3.405.Peer-Reviewed Original ResearchComparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis.
Ohno-Machado L, Vinterbo S, Dreiseitl S, Jenssen T, Kuo W. Comparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis. AMIA Annual Symposium Proceedings 2002, 572-6. PMID: 12463888, PMCID: PMC2244491.Peer-Reviewed Original Research